David Simons's repositories
arenavirus_hantavirus
A repository to consolidate published research on Areanviruses and Hantaviruses in rodents.
academic_distill
This is my new personal website. I migrated from HuGo to allow me to directly incorporate rmd files.
arenavirus_hantavirus_app
An RShiny application to explore, subset and download the data extracted as part of the arenavirus_hantavirus project.
lassa_underreporting
A brief analysis to understand the expected number of Lassa fever cases derived from mortality data.
rodent_trapping
Initialising rodent trapping project
data_for_gbif
This repository is to clean and organise the data from a paper published on rodent trapping across West Africa.
data_for_pharos
Format rodent trapping and serology data for inclusion into Pharos
embarcadero
🌲🌉 Species distribution models with Bayesian additive regression trees
extended_rodent_trapping
This contains the analysis that was previously included in the rodent_trapping repository but has since been reduced to only cleaning.
lassa_modelling
Chapter 5
Lassa_phylogeography
LASV from NCBI and analysis of epitopes
lassa_risk
A systematic review and meta-analysis of risk factors associated with exposure, infection and disease for Lassa fever
lassa_time_to_diagnosis
A review of cases to estimate time to diagnosis for Lassa fever
mastomys_distribution
Species distribution modelling for Mastomys natalensis
PPR
Repository for PPR assay systematic review
robotoolbox
An R Client for the KoBoToolbox API v2 - https://dickoa.gitlab.io/robotoolbox/
rodent_borne_zoonses_fig
Timeline of rodent borne zoonoses figure
shrew_classification
To test the model for shrew classification on data from BNITM